| SNP Id | Position | Reference Allele | Alternate Allele | DP | Quality | Located At | Type | Genotype | Function |
| Scaffold_244 | 55944 | A | G | 16 | 54.77 | exon | Transition | 0/1 | Zinc finger CCCH domain-containing protein 40 (OsC3H40) |
| Scaffold_244 | 56328 | A | G | 18 | 58.77 | CDS | Transition | 0/1 | Zinc finger CCCH domain-containing protein 40 (OsC3H40) |
| Scaffold_244 | 56368 | G | A | 15 | 222.77 | CDS | Transition | 0/1 | Zinc finger CCCH domain-containing protein 40 (OsC3H40) |
| Scaffold_244 | 56556 | C | T | 24 | 148.77 | CDS | Transition | 0/1 | Zinc finger CCCH domain-containing protein 40 (OsC3H40) |
| Scaffold_244 | 56559 | G | A | 23 | 151.77 | CDS | Transition | 0/1 | Zinc finger CCCH domain-containing protein 40 (OsC3H40) |
| Scaffold_244 | 56612 | A | G | 20 | 155.77 | CDS | Transition | 0/1 | Zinc finger CCCH domain-containing protein 40 (OsC3H40) |
| Scaffold_244 | 56752 | C | T | 11 | 147.77 | CDS | Transition | 0/1 | Zinc finger CCCH domain-containing protein 40 (OsC3H40) |
| Scaffold_244 | 56753 | A | G | 12 | 126.77 | CDS | Transition | 0/1 | Zinc finger CCCH domain-containing protein 40 (OsC3H40) |
| Scaffold_244 | 56843 | A | G | 16 | 66.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_247 | 2812 | G | A | 12 | 67.77 | intron | Transition | 0/1 | Unannotated |
| Scaffold_248 | 7088 | G | A | 14 | 75.77 | intron | Transition | 0/1 | 12-oxophytodienoate reductase 1 (EC 1.3.1.42) (12-oxophytodienoate-10,11-reductase 1) (OPDA-reductase 1) (LeOPR1) |
| Scaffold_251 | 55011 | C | T | 27 | 446.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_254 | 33489 | T | C | 250 | 134.77 | noncoding | Transition | 0/1 | Unannotated |
| Scaffold_254 | 34385 | G | A | 250 | 286.77 | CDS | Transition | 0/1 | Unannotated |
| Scaffold_254 | 61952 | G | A | 10 | 199.77 | intron | Transition | 0/1 | GDSL esterase/lipase At5g14450 (EC 3.1.1.-) (Extracellular lipase At5g14450) |
| Scaffold_257 | 16650 | A | G | 71 | 100.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_264 | 1597 | A | G | 68 | 147.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_264 | 79488 | T | C | 250 | 200.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_264 | 79694 | T | C | 250 | 74.77 | exon | Transition | 0/1 | Unannotated |
| Scaffold_268 | 71563 | A | G | 99 | 49.77 | intron | Transition | 0/1 | Unannotated |